Ligand clusters for UniProt code P01903

Ligand clusters for P01903: HLA class II histocompatibility antigen, DR alpha chain from Homo sapiens

		Top 6 (of 22) ligand clusters Cluster 1. 11 ligand types 14 ligands Cluster 2. 4 ligand types 36 ligands Cluster 3. 4 ligand types 50 ligands Cluster 4. 8 ligand types 17 ligands Cluster 5. 5 ligand types 5 ligands Cluster 6. 5 ligand types 13 ligands
Representative protein: 3pdoA

Structures

PDB		Schematic diagram
3pdoA
4mdjA
6cplA
2g9hA
4y19A
		more ...

Cluster 1 contains 11 ligand types

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Ligand		Description
		1. Ligand: PO4 × 4 Phosphate ion PDB codes: 1r5i(A), 2oje(A),
		2. Ligand: ACE-ALC-ARG-ALA-MET-CY1-SER-LEU-NH2 × 1 ACE=Acetyl group, ALC=2-Amino-3-Cyclohexyl-Propionic acid, CY1=Acetamidomethylcysteine, NH2=Amino group. PDB code: 1d5m(A).
		3. Ligand: ACE-ALC-ARG-ALA-ODA-SER-LEU-NH2 × 1 ACE=Acetyl group, ALC=2-Amino-3-Cyclohexyl-Propionic acid, ODA=9-Amino-6,10-Dioxo-Octahydro-Pyridazino[1,2-A][1, 2]diazepine-1-Carboxylic acid, NH2=Amino group. PDB code: 1d5z(A).
		4. Ligand: ACE-ALC-ARG-MAA-HAQ-SEL × 1 ACE=Acetyl group, ALC=2-Amino-3-Cyclohexyl-Propionic acid, MAA=N-Methyl-L-Alanine, HAQ=5-Amino-4-Oxo-1,2,4,5,6,7-Hexahydro-Azepino[3,2,1- Hi]indole-2-Carboxylic acid, SEL=2-Amino-1,3-Propanediol. PDB code: 1d5x(A).
		5. Ligand: ACE-ALC-ARG-MPQ-MET-ALA-SER-TBG-NH2 × 1 ACE=Acetyl group, ALC=2-Amino-3-Cyclohexyl-Propionic acid, MPQ=N-Methyl-Alpha-Phenyl-Glycine, TBG=3-Methyl-L-Valine, NH2=Amino group. PDB code: 1d6e(A).
		6. Ligand: ACE-PHE-VAL-LYS-GLN-ASN-ALA-MAA-ALA-LEU × 1 ACE=Acetyl group, MAA=N-Methyl-L-Alanine. PDB code: 1pyw(A).
		7. Ligand: ASN-CYS-LEU-LYS-LEU-ALA-THR × 1 PDB code: 4fqx(A).
		8. Ligand: EDO × 1 1,2-Ethanediol PDB code: 6hby(A).
		9. Ligand: GLY-LYS-GLN-ASN-CYS-LEU-LYS-LEU-ALA-THR × 1 PDB code: 4gbx(A).
		10. Ligand: SO4 × 1 Sulfate ion PDB code: 2g9h(A).
		11. Ligand: VAL-HIS-PHE-PHE-LYS-ASN-ILE-VAL-THR-PRO × 1 PDB code: 1hqr(A).

Cluster 2 contains 4 ligand types

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Ligand		Description
		1. Ligand: NAG × 33 n-acetylglucosamine 2-Acetamido-2-Deoxy-Beta-D-Glucopyranose PDB codes: 1a6a(A), 1dlh(A), 1fyt(A), 1h15(A), 1j8h(A), 2wbj(A), 4gbx(A), 4mcz(A), 4md0(A), 4md4(A), 4md5(A), 4mdi(A), 4mdj(A), 6atf(A), 6ati(A), 6atz(A), 6bil(A), 6bin(A), 6bir(A), 6biv(B), 6bix(A), 6biy(A), 6biz(A), 6cpl(A), 6cpn(A), 6cpo(A), 6cql(A), 6cqn(A), 6nix(A), 6v0y(A), 6v13(A), 6v15(A), 6v1a(A).
		2. Ligand: NAG-FUC-FUC × 1 NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, FUC=Alpha-L-Fucopyranose. PDB code: 5v4m(D).
		3. Ligand: NAG-NAG × 1 NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose. PDB code: 4h25(A).
		4. Ligand: NAG-NAG-BMA-MAN-MAN-MAN-MAN × 1 NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose, MAN=Alpha-D-Mannopyranose. PDB code: 4y19(A).

Cluster 3 contains 4 ligand types

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Ligand		Description
		1. Ligand: NAG × 32 n-acetylglucosamine 2-Acetamido-2-Deoxy-Beta-D-Glucopyranose PDB codes: 1a6a(A), 1bx2(A), 1d5m(A), 1fyt(A), 1ymm(A), 2seb(A), 3c5j(A), 4gbx(A), 4mcz(A), 5v4m(D), 5v4n(A), 6ati(A), 6atz(A), 6bil(A), 6bir(A), 6biv(B), 6bix(A), 6biy(A), 6biz(A), 6cpo(A), 6cqj(A), 6cql(A), 6cqn(A), 6cqq(A), 6cqr(A), 6nix(A), 6v0y(A), 6v13(A), 6v15(A), 6v18(A), 6v19(A), 6v1a(A).
		2. Ligand: NAG-NAG × 15 NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose. PDB codes: 1h15(A), 4fqx(A), 4h25(A), 4h26(A), 4md0(A), 4md4(A), 4md5(A), 4mdi(A), 4mdj(A), 4y19(A), 4y1a(A), 6atf(A), 6bin(A), 6cpl(A), 6cpn(A).
		3. Ligand: NAG-NDG × 2 NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, NDG=2-Acetamido-2-Deoxy-Alpha-D-Glucopyranose. PDB codes: 1dlh(A), 1j8h(A).
		4. Ligand: SO4 × 1 Sulfate ion PDB code: 2g9h(A).

Cluster 4 contains 8 ligand types

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Ligand		Description
		1. Ligand: GOL × 7 glycerin Glycerol PDB codes: 4aen(A), 6v13(A), 6v15(A), 6v18(A), 6v19(A), 6v1a(A).
		2. Ligand: IPA × 1 isopropyl alcohol Isopropyl alcohol PDB code: 4h25(A).
		3. Ligand: EDO × 3 1,2-Ethanediol PDB codes: 4md4(A), 4md5(A), 6hby(A).
		4. Ligand: SO4 × 2 Sulfate ion PDB codes: 6cpl(A), 6cpn(A).
		5. Ligand: ACT × 1 Acetate ion PDB code: 6cpl(A).
		6. Ligand: DIO × 1 1,4-Diethylene dioxide PDB code: 2g9h(A).
		7. Ligand: PEG × 1 Di(hydroxyethyl)ether PDB code: 6cqj(A).
		8. Ligand: PO4 × 1 Phosphate ion PDB code: 6hby(A).

Cluster 5 contains 5 ligand types

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Ligand		Description
		1. Ligand: IPA × 1 isopropyl alcohol Isopropyl alcohol PDB code: 4h25(A).
		2. Ligand: EDO × 1 1,2-Ethanediol PDB code: 4md4(A).
		3. Ligand: EPE × 1 4-(2-Hydroxyethyl)-1-Piperazine ethanesulfonic acid PDB code: 2g9h(A).
		4. Ligand: PGE × 1 Triethylene glycol PDB code: 6cpo(A).
		5. Ligand: SO4 × 1 Sulfate ion PDB code: 6cpn(A).

Cluster 6 contains 5 ligand types

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Ligand		Description
		1. Ligand: GOL × 7 glycerin Glycerol PDB codes: 3pdo(A), 3s5l(A), 4ah2(A), 6v13(A), 6v15(A), 6v18(A), 6v1a(A).
		2. Ligand: EDO × 3 1,2-Ethanediol PDB codes: 4md5(A), 6hby(A).
		3. Ligand: MPD × 1 (4s)-2-Methyl-2,4-Pentanediol PDB code: 5nig(A).
		4. Ligand: MRD × 1 (4r)-2-Methylpentane-2,4-Diol PDB code: 5ni9(A).
		5. Ligand: PGE × 1 Triethylene glycol PDB code: 5nig(A).